Bach said the Russia scandal along with Brazil's political and economic crises had made the runup to the first Olympics in South America "challenging".
An investigation by Canadian lawyer Richard McLaren which revealed state-organised doping in Russia has overshadowed the buildup to the Rio Games which start Friday.
Eighteen canoeists and rowers made late appeals on Monday adding to challenges from three swimmers, a wrestler and the Russian weightlifting federation already in a queue at the Court of Arbitration for Sport (CAS).
"If proven true, such a contemptuous system of doping is an unprecedented attack on the integrity of sport and on the Olympic Games."
The IOC has been criticised for not ordering a blanket ban against Russia. But the German leader of the Olympic movement said there had to be "justice" for athletes who are clean.
"You cannot punish a human being for the failures of his or her government if he or she is not implicated," he said. Russia has denied any government backing for doping but its sports minister Vitaly Mutko has been barred from attending the Rio Games.
This has led to the wave of cases at the CAS which has organised special hearings in Rio to deal with the appeals.
About 30 Russians have now appealed, directly or indirectly, against bans from the Rio Olympics ordered by international federations. More could follow.
CAS said in a statement that canoeist Andrey Kraytor and 17 Russian rowers led by Daniil Andrienko had also made appeals to the tribunal.
Another appeal by swimmer Yulia Efimova was adjourned
The Russian weightlifting federation has challenged its suspension by the International Weightlifting Federation over the doping scandal. It has said that if this is successful it will start a new case on behalf of eight lifters excluded from the Olympics.
The IOC chief has become involved in a political battle with the World Anti-Doping Agency (WADA) over who is to blame for the chaos coming so close to the Rio opening.
Bach has said the IOC is not responsible as it did not decide the release of the McLaren report nor control the anti-doping laboratories that Russian authorities have been accused of manipulating.
"While it is destabilising in the lead-up to the Games, it is obvious, given the seriousness of the revelations that (McLaren) uncovered, that they had to be published and acted upon without delay," WADA president Craig Reedie said.
Bach predicted this week that Rio will put on "great" Games, despite the doping scandal and multiple problems the organisers have faced preparing facilities for the 10,500 expected athletes.
Hundreds of plumbers have been working on water and pipe problems at the athletes' village. Workers have also been repairing the ramp to be used at the sailing venue in Guanabara Bay which collapsed after being hit by high winds and waves on Saturday.
Some of the Olympic football matches will start on Wednesday ahead of the main Games and while the IOC session is debating doping and key business for future Olympics.
The meeting is due to accept recommendations that climbing, karate, surfing, skateboarding and baseball-softball be added to the bill for Tokyo 2020.
The 100 IOC members could also get reminders over the looming award of the 2024 Games which is being contested by Budapest, Los Angeles, Paris and Rome.
France's President Francois Hollande and Italy's Prime Minister Matteo Renzi will be among at least 45 heads of state and government at the opening ceremony in Rio on Friday.
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