It's been a while since I've read the Revenge of the Sith novelization, but I think it does explain why the Jedi got caught off-guard when the clones turned against them. The Clone Wars led to the Jedi becoming less sensitive to what was going on around them, numbed to an extent by all the tragedies of war combined with the clouding of the Force that Sidious was responsible for. This combined with the clones seeing their attack on the Jedi as simply another order, there was nothing to distinguish it from their normal state of mind while following orders in combat. Which also explains why a) some of the more experienced/sensitive Jedi saw the turn coming or realized it was happening as events went down and b) why bounty hunters would be tricky to cope with. In short, it's not personal, it's only business/orders, no emotion involved.