Comeback & Rift With Greg Chappell -

In September 2005, Greg Chappell became the coach for the India tour of Zimbabwe. Ganguly's dispute with him resulted in many headlines. Chappell had emailed the Board of Control for Cricket in India, stating that Ganguly was "physically and mentally" unfit to lead India and that his "divide and rule" behaviour was damaging the team. This email was leaked to the media and resulted in huge backlash from Ganguly's fans. Ganguly had enlisted the support from the Indian media and eventually the board had to intervene and order a truce between the pair. BCCI president Ranbir Singh Mahendra issued a statement that,

"In view of the decision that cricket is to go forward, both the coach and the captain have been asked to work out a mutual and professional working relationship. For this, performance will be the criteria, applicable to captain, coach and players. [...] Of course the captain controls the game, the coach does his own job. Mutual trust is important. Henceforth no player/captain/coach will write or have any interaction with the media. Going to the media will lead to disciplinary action."

Ganguly, Chappell and the Indian team manager for the Zimbabwe tour, Amitabh Choudhary, were asked to appear before the BCCI committee, where it was reported that assurance of working together was given by them. Consequently, due to his poor form and differences with the coach, Ganguly was dropped as the captain of the team, with Dravid taking his place. Chandresh Narayan, chief correspondent for The Times of India, commented that "The row with Greg Chappell just added to the mystery, but he was going through a really bad patch then, his only score [of note] was a hundred against Zimbabwe and that didn't count for much."Ten months later, during India's tour to South Africa, Ganguly was recalled after his middle order replacements Suresh Raina and Mohammad Kaif suffered poor form.

Following India's poor batting display in the 2006 ICC Champions Trophy and the ODI series in South Africa, in which they were whitewashed 4-0, Ganguly made his comeback to the Test team. Wasim Jaffer, Zaheer Khan and Anil Kumble had earlier been selected for the one-day squad, despite their recent poor performances. Many saw this as an indictment of coach Greg Chappell's youth-first policy. Coming in at 37/4, Ganguly scored 83 in a tour match against the rest of South Africa, modifying his original batting style and taking a middle-stump guard, resulting in India winning the match. During his first Test innings since his comeback, against South Africa in Johannesburg his score of 51 helped India to victory, marking the first Test match win for the team in South Africa. Though India lost the series, Ganguly accumulated the most runs on the 

scoring chart. After his successful Test comeback he was recalled for the ODI team, as India played host to West Indies and Sri Lanka in back to back ODI tournaments. In his first ODI innings in almost two years, he scored a matchwinning 98. He performed well in both series, averaging almost 70 and won the Man of the Series Award against Sri Lanka.

Ganguly was alloted a place in the official team for the 2007 Cricket World Cup. He was the leading scorer for India in their first round defeat against Bangladesh. After India were knocked out of the tournament in the group stage, there were reports of a rift between certain members of the Indian team and Chappell. Ganguly was alleged to have ignored instructions from the team management to score quickly.After Tendulkar issued a statement saying that what hurt the team most was that "the coach has questioned our attitude", Chappell decided not to renew his contract with the Indian team and left his post as coach, citing "family and personal reasons". 

On 12 December 2007, Ganguly scored his maiden double century of his career while playing against Pakistan. He scored 239 runs in the first innings of the third and final Test match of the series. He was involved in a 300  run partnership for the fifth wicket with Yuvraj Singh. Ganguly remained prolific in both Test and ODI cricket in the year 2007. He scored 1106 Test runs at an average of 61.44 (with three centuries and four fifties) in 2007 to become the second highest run-scorer in Test matches of that year after Jacques Kallis. He was also the fifth highest run-scorer in 2007 in ODIs, where he scored 1240 runs at an average of 44.28.