My receiver is a Pioneer VSX-92 - a high end Elite model from a few years ago. The stereo speaker pair are Epos M15 - very accurate. I didn't say you can't make a system sound different through the processor. Obviously you can. My comment was that, if you have it calibrated properly, a stereo source such as a CD should sound about the same in a surround mode as it does in pure direct stereo. Obviously, the processor will add additional speakers and that will change the ambience. But the mains should sound about the same. When I calibrate the sound system my goal is to get the mains sounding the same in both pure direct and my most commonly used surround mode which is called THX Cinema on my receiver. When people get radically different sounds in these two modes from the stereo pair, my opinion is that the calibration wasn't well done.
According to your AVR's manual;
Use the Stream Direct modes when you want to hear the
truest possible reproduction of a source.
• DIRECT – Sources are heard according to the
settings made in the Surround Setup (speaker
setting, channel level, speaker distance, acoustic
calibration EQ, and X-curve), as well as with dual
mono, the input attenuator, and any sound delay and
hi-bit/hi-sampling settings. You will hear sources
according to the number of channels in the signal.
• PURE DIRECT – Analog and PCM sources are heard
without any digital processing.