Not sure what "measured the beams from the unit itself" means exactly, but you do need to know each laser is running at full power and continuous wave if you want to accurately measure the output power with a normal optical/thermal power meter.
If you're telling your software/DAC to output a 100% power R,G or B beam and measuring that at the projectors output window then you will most certainly get some depressing figures. For instance, if I output a single 100pt target beam in LivePro and measure the output with a LC, I get around 400mW out of a laser that's over 1.2w on full chat, this doesn't mean I have a laser or software problem (in fact I'm very happy with both

) it just means the laser is off (blanked) for a period of time by design, and the LC wand is (badly) averaging the on/off cycle.