I would certainly not change the value of the first capacitance after your tube rectifiers by much, since the spec is 40uf for the 5U4G.
That said, you can up it little, some people increase it a lot, but I think that puts your rectifiers at risk of flashover.
The second capacitor is fair game and I increase that one on every one of my amps to 80uf-120uf. For my ears it tightens up the bass a lot. (But so would just putting in new caps!)
The third position I have seen it done both ways and heard arguments that that last cap filters the whole power supply.
On the other hand, as you can see a lot of people like to keep their old hardware stock values, and you can be certain that is a very very safe thing to do most of the time.
The best part is, you have some wonderful pieces and a very nice dilemma. Picking parts is actually 2/3 of the fun for me!
If you post pics as you go we will all enjoy it more than you know.
Dan