Good points. Disagree with a few things though;
1. Baku is too large to be warped by Kamui, Katon is a far easier option.
2. Kakashi's chakra is outstanding. I can't see him getting low on chakra by just using his regular ninjutsu and forgetting about using MS.
3. Kakashi tends to replace himself with a clone in almost all his fights, as shown against Zabuza, Kakashi, Pain, etc. This will be no different and the moment Danzo lands the seal on Kakashi, Kakashi will gain intel on it and know to avoid being touched by his hand at all costs. Given his insane agility, MS pre-cog (superior to 3T) and superior Taijutsu ability, it shouldn't be difficult at all.
4. His intelligence is also quite a large factor in this fight. I don't see any reason as to why he wouldn't be able to replicate Sasuke's intelligence feat by placing Danzo into Genjutsu after figuring out the workings of Izanagi. He's figured out pretty much every jutsu he's every been up against, Izanagi should be no exception.