Leaving the tops off also increases the amount of light that gets through. Even good glass can reduce light transmission up to 15%. However, if you have jumpers then it would probably be better to lose a little light than lose a fish. If you have a sump &/or skimmer your gas exchange should be ok (imo), even with the glass on.
With that said, I would recommend getting them as close as is feasible. The only drawback is that the Tek reflectors are hard to clean if you don't wipe them down at least once a month.
-Kevin
BTW, if you got the acrylic shield with the fixture and are using the glass tops you can ditch the acrylic to increase the amount of light that gets into the tank.