If you raised the output gain to compensate for lowering the lows and highs, then it's not a question of the "perception" of gaining mids, but an actual description of what's happening. It may or may not sound good to you -a lot of people say they followed that method to boost the mids and they still didn't like the sound- but that's different from saying the mids were not boosted. "Mids" covers a lot of turf, and if the particular frequency range emphasized that way is higher or lower than you like, there may be the "perception"

that the mids were not boosted.
I still don't know where you're getting the idea that SWR amps are mid-scooped. Even if the one you have sounds scooped with the EQ in what you think is a "flat" position, I 100% guarantee the EQ is not in fact in a flat position. You'll want to re-read the manual, or ask in the amps forum from other owners of the same amp, to find out what the actual "flat" EQ position is. Set the EQ correctly and SWR is not scooped.