Lack of chunky modes is the least of your concerns when dealing with real 3D.
In terms of rendering it's pretty important. Texture mapping hardware and geometry/lighting maths in hardware are what you'd want next, but it would have made a huge difference.
Commodore should easily have been able to produce something with chunky pixels and non perspective corrected texture mapping in hardware (ie primitive PS1) by 1991. But they had to rush to get AGA out the door because they had been chasing AAA for so long. It would have still sold a boat load if it only had 8 bit colour and 8 bit sound, but they would have had to release another machine in 1994 to leapfrog the PS1 though.
Isn't this great?
Sometimes I ask myself why didn't we have games like this on amiga taking advantages of 040/060 :-/
People left on the Amiga seem to be intent on creating web browsers and other productivity apps, rather than writing games. If AGA hadn't been a rush to get something out of the door then it would have had chunky video and the blitter would be more than just the OCS blitter copy and pasted, and you'd have games like that on stock machines.
https://www.youtube.com/watch?v=WpwlZgQPCpk
https://www.youtube.com/watch?v=jjgWx3DE1CY
https://www.youtube.com/watch?v=RTxwfRl_I0U
No Amiga can do that with a 16 mhz 68030.
I think I can live without Quake 2 in low res at 6fps. The DSP helps with all that geometry sure, but the rest of the hardware can't keep up. I'm not sure why anyone would want a 16mhz 68030 with no fast ram on an A1200, apart from an extra 2mhz and the extra cache it would barely be any different.
There seems to be some competition in the thread
http://www.atari-forum.com/viewtopic.php?f=68&t=26775&start=950 I'm not quite sure why he's having so much problems with data caches on the Amiga though.