If you put a load on your battery approximately equal to expected solar charging amps that will keep battery voltage from rising significantly. Use the same load for both PWM and MPPT.
If you use this setup and battery voltage less than 12.5 loaded then the only difference between the MPPT and PWM test would be the max amps the controllers can put into the system as this setup should cause both systems to operate at maximum available power for thier respective configerations. You should see higher amps coming from the MPPT but your experiment will tell you the real data.
A theorietical calculation for consideration assumming perfect conditions and battery voltage maintained at 12.5 to keep both controllers in bulk charge mode and that maximum power point for the 100 watt panels is 18volts giving a Imp of 5.5 amps
With PWM you would in theory see about 5.6 amps from each panel for a total of 11.2 or a total of 140 watts actual power output (11.2 x 12.5)
With MPPT you would in theory see 200/12.5 or 16 amps. In theory the MPPT drives the panels at max power
Can't wait to see what your actual results are. Good luck