Your tendons are going to be a little achy for a bit, as that is going to be one of the changes you'll experience on the hormone journey. That'll go away in a few months.
The tiredness is somewhat subjective. You won't have quite as much raw energy as you had on Testosterone. That part is pretty standard. With that being said, you are not supposed to be completely run down. I would give it a few weeks to adjust, but if you're still completely run down then you may be too low on estrogen.
I wouldn't suggest hitting the coffee too heavily. It is somewhat counter productive to hormone therapy. Sure you'll get some quick energy, but it'll hinder your transition to some degree. So keep it in moderation. If you're on Spiro, adding another dieuretic, like coffee, is going to get you dehydrated a lot quicker. Keep it within reason and you should be fine.
I can't imagine a 3 1/2 hour workout session being beneficial. That just sounds like an easy way to break down your body. I'd try to stick to an hour a day. I've never seen a workout program that was beneficial after the first 60 minutes. I could leave the gym exhausted after an hour. There'd be a lot of sitting idle to stretch a 2 hour workout, let alone 3+ unless there was a ton of stretching and resting involved.