The following is a timeline of Phase Two of the Battle of Mosul (2016–17) between December 2016 to February 2017.

Late December: Launch of Phase Two 29 December Iraqi forces launched the second phase of the battle on 29 December, pushing from three directions into eastern Mosul districts. Iraqi soldiers and Iraqi Federal Police entered about half a dozen southeastern districts. Counter Terrorism Service (CTS) meanwhile advanced in al-Quds and Karama districts. In the third front, Iraqi soldiers also pushed toward the northern limits. Jabouri stated that they were ordered by the Prime Minister to reach the Tigris River. An ISIL headquarters in al-Thobat district was reportedly destroyed in coalition airstrikes, killing 12 militants. Later in the day, the commander of the operation declared that they had captured 2 villages to the north of Mosul, killing 70 militants. Iraqi forces had captured half of al-Quds by early afternoon. The Iraqi military later announced that they had killed more than 200 militants during the day.

30 December Iraqi security forces advanced in several areas on 30 December. In the northern front, the 16th Division stormed the Habdaa district while also trying to cut off the supply lines to Tel Kayf. Meanwhile, ISIL was reported to have evacuated family members of its foreign fighters from four districts in western Mosul. 2 ISIL attacks in eastern Mosul were later repelled. Ammar al-Haweidi, who is an elite leader of ISIL was reported to have been killed by the Iraqi Federal Police. Clashes broke out again in one of the villages reported to be captured a day earlier.

31 December Heavy clashes occurred on the southeastern and northern fronts of Mosul on 31 December. An Iraqi Army officer deployed in the southeastern front reported that their advances had slowed down, due to heavy clashes and difficulty in differentiating between civilians and militants. Iraqi forces on the northern front advanced towards the periphery of Mosul, with an officer stating that heavy clashes were ongoing in the Argoob area. The CTS destroyed four VBIEDs when ISIL tried to attack them in the street linking al-Ta'mim neighborhood and the garage area in east Mosul. The U.S. military meanwhile stated that its airstrikes on a van carrying ISIL fighters at a hospital compound parking lot might have killed civilians.

January: Second Phase and capturing eastern Mosul 1 January Iraqi forces continued their advance on 1 January 2017. The military announced that it had captured a part of the Karama district, and a Federal Police officer stated that they had taken near complete control of Intissar and Siha districts, and were clearing the Salam district. CTS linked up with Rapid Response Division during the day at the edge of al-Intissar and al-Quds. Staff Lieutenant General Abdulwahab al-Saadi, a top CTS commander, stated that Iraqi forces had captured more than 60% of east Mosul. Iraqi Defence Ministry's War Media Cell announced during the day that Iraqi forces had captured Yunus al-Sabaawi and Yafa districts in the southeastern part of the city. Lt. Col. Eyad al-Awsyi said that they had also completely captured al-Intissar, and were nearing completion of capturing Karama. Federal Police announced later in the day that they had captured the Gogjali-Intsar road. They also stated during the day that they had captured the strategic No.60 Street to the southeast of Mosul. Army major Ali Mohsen meanwhile said that the Iraqi Army had captured al-Malayeen, al-Kindi and al-Arabi al-Thania districts.

2 January CTS announced on 2 January that they had completely captured al-Karama district. Sabah al-Numan, the CTS spokesman, later stated that they were clearing the remaining militants in North Karama. ISIL meanwhile cut off a strategic road linking Mosul and Baghdad. The group also shelled Shirqat, after attacking a military barracks near Baiji and seizing weapons. According to the Mayor of Shirqat, they had seized 3 checkpoints on the main road between the city and Baiji. Iraqi authorities later said that they had regained control of the road.

3 January Iraqi forces stormed three districts on 3 January and killed 50 militants during clashes in 2 of them. The operation commander said that Iraqi Air Force airstrikes had destroyed the office of ISIL's hisbah police located on Mosul-Tel Afar road, and several warfare utilities of the group. The Federal Police said that it had destroyed the headquarters of Jund al-Khilafa (Soldiers of Caliphate), an ISIL explosives factory and a drone headquarters in al-Mithaq district. The Iraqi Army announced later that CTS had captured Karama industrial neighborhood, the Industrial district, the Karama Silo (a flour mill), and a Mercedes Company building during the day. The Ministry of Defense later announced that Iraqi forces had captured the area of exhibitions and the commercial complex to the south of Ta'mim district. The forces later announced that they had captured Al-Hay al-Senai and al-Mithaq districts as well as the Maaridh area to the east of Mosul.

4 January Iraqi forces cleared Mithaq district and advanced in al-Wahda on 4 January. The United Nations said that civilian casualties had started increasing as they advanced. The Joint Operations Command said that the Federal Police and 9th Division had captured Wahda after heavy clashes, bringing them closer to the city center, and that ISIL counter-attacks in southeastern Mosul had been repelled, with the death of about 40 militants and destruction of 7 VBIEDs. Iraqi forces also advanced in al-Salam, Palestine, al-Shaimaa, Domiez and Sumer districts amid heavy clashes. The Federal Police meanwhile announced the killing of Abu Marawan al-Hadithi, an ISIL leader. Lt.-Gen. Ra'ed Shaker also said that Iraqi forces had cleared al-Wahda, al-Moallemin and Sumer districts, and had captured the Mosul-Kirkuk road. The United States Department of Defense and the anti-ISIL coalition stated that American advisers had entered Mosul along with Iraqi forces.

5 January Lt.-Gen. Talib Shaghati stated on 5 January that Iraqi forces had captured about 65–70% of east Mosul. During the day, the Federal Police said that they had destroyed three ISIL drones in east Mosul. An attack on PMU near Tal Afar was meanwhile reportedly repelled, with the deaths of 35 militants including senior recruitment agent Abu Qaswara al-Shami. The Federal Police announced that 1,700 ISIL fighters had been killed in the second phase. General Raed Shaker Jawdat stated that the group's headquarters in Nineveh province had been destroyed and Iraqi forces had captured eight districts in the second phase, thus bringing the entire southeastern section of Mosul under their control. He added that they had also captured drone factories, five car bomb manufacturing plants, an electrical plant, a windmill and several schools. He said that all the remaining districts in east Mosul had been surrounded and would be stormed soon.

6 January On 6 January, CTS was reported to have stormed the al-Muthanna district during an overnight raid across the al-Khawsar river. A CTS spokesman later said that ISIL had been driven out of the district and dozens of militants killed in airstrikes by the anti-ISIL coalition. This was the first time that Iraqi forces had entered Mosul from the north. They also launched an assault on the Hadbaa apartment complex in the northern front, and faced heavy clashes later in the day.

7 January Iraqi forces continued their advance on 7 January, coming within several hundred metres of the Tigris river. During the day CTS said that they had captured the al-Gharfan district (previously known as al-Baath) and had entered Wahda district. The military later announced that they had captured a hospital complex in Wahda. Meanwhile, a spokesman of the anti-ISIL coalition stated that ISIL had deliberately damaged the fourth bridge as Iraqi forces advanced. Staff Lieutenant General Yarallah said that Iraqi forces had captured Al-Salam Hospital, Al-Shifa Hospital and the Faculty of Medicine, a medical college. They had also captured ISIL's command center and two prisons. He later said that CTS had captured Rifaq, Atibaa 1st and Atibaa 2nd districts, and well as the Hadbaa residential complex.

8 January On 8 January, al-Saadi said that CTS troops advancing towards Sukkar and Baladiyat districts had been attacked by ISIL from a historic hill, but had been repelled with the help of coalition warplanes, killing dozens of militants. Security sources said that Iraqi forces were shelling ISIL's positions in al-Kindi district in preparation for storming it later, while the 9th division and Federal Police had launched an attack on Sumer and Domiz districts in the southeastern front. The CTS spokesman said that Iraqi forces had reached the Tigris river for the first time in the offensive, advancing towards the eastern side of the fourth bridge. Brett McGurk, USA's envoy to the anti-ISIL coalition, said that ISIL's defences in eastern Mosul were showing signs of collapse. An ISIL attack on Hadbaa apartments was later reportedly repelled, with the death of about 10 militants and destruction of 4 VBIEDs. PMU meanwhile stated that they had repelled an ISIL attack near Adaya, located to the west of Mosul, killing about 10 militants.

9 January Iraqi military stated on 9 January that CTS had captured the Baladiyat district in the eastern front while the Federal Police and Iraqi Army had captured Domiz and Palestine districts in the southeastern front. CTS also carried out operations to clear Furqan and Atiba districts. An ISIL attack in Furqaan was repelled according to the military, resulting in deaths of 30 militants. Iraqi Defense Ministry's War Media Cell meanwhile stated that Iraqi Air Force killed 25 militants in airstrikes in eastern Mosul while airstrikes by the anti-ISIL coalition killed about 20 militants in al-Abra village near Tal Afar. The group which was still in control of the city's water stations, was reported to have cut the water supply to more than 30 districts captured by Iraqi forces. ISOF meanwhile surrounded the University of Mosul.

10 January Iraqi Joint Operations Command stated on 10 January that CTS forces had captured the Sukkar and al-Dhubbat districts while advancing in Siddeeq and al-Maliyah districts. Several governmental offices including the communication complex, provincial electricity department and a security headquarters were also captured according to it. It also stated that ISIL had blown up two bridges in order to prevent Iraqi forces from attacking western Mosul. It added that in the southeastern front, the Federal Police and Iraqi Army pushed further into al-Salam, Palestine, Sumer, Yarimja and Sahiron districts. Regarding the northern front it stated that Iraqi Army advanced further into al-Hadbaa while capturing northern part of Sabaa Nisaan. Meanwhile, a security source stated that Iraqi Air Force had conducted airstrikes on headquarters of ISIL's Australian leaders in Mosul, killing the commander of Australian Brigade Khaled Sharouf, also known as Abu Mosab al-Australi along with three of his aides.

11 January Iraqi forces continued advancing on 11 January with military officials stating that the CTS had advanced in the Sadeeq district and were firing into the adjacent Hadbaa. Iraqi forces also clashed with ISIL in the southern front during the day.

12 January