If you put the IR tube at the end of the barrel, and the flash is still visible behind, you should be good - seen that done on tanks like the Pershing where the muzzle break is quite large.
The basic philosophy is that a) the opponent must be able to see the flash so that they can time their actions accordingly, and b) the audience can tell who fired at who... (kind of important to the museum when they invite the public to come and watch)
The tube size is based on the stock Tamiya spec (because that's where the hobby started, its the accepted baseline that anyone building a stock Tamiya can comply with) - it not only focuses the IR beam to an extant, it also narrows it so that you don't hit out your team mates next to you.
Unfortunately I have lost touch over the years with a lot of my friends who attend there regularly, so I would suggest reaching out on RCUniverse if you need further guidance
