The download for the prototype in question has already been posted quite a while ago here (Edit: The downloads in that topic no longer work, so here's a new one), but I'd like to revisit it, as I believe it contains a yet to be discovered debug menu. Considering how feature-rich the recently discovered ICO debug menu is, the prospect of cracking this is really tantalizing to me. The contents of the CD are:
The TOOLS folder is what interests me, as all the files in it are clearly debug related. DBGCORE.XFF makes references to all of the TOOL files in the folder, as well as several other ones that are absent from the disk (SHTTOOL.XFF, SCRATOOL.XFF, COLTOOL.XFF, WINDTOOL.XFF, and CAMTOOL.XFF).
[MODULES]
---DBCMAN.IRX
---DS1O_D.IRX
---LIBSD.IRX
---MC2_D.IRX
---PL2303.IRX
---SIO2D.IRX
---SOCKOND2.IRX
---USBD.IRX
---USBKB.IRX
[MODULES2]
---MCMAN.IRX
---MCSERV.IRX
---MCXMAN.IRX
---MCXSERV.IRX
[MODULES3]
---CDVDSTM.IRX
---USBMOUSE.IRX
[TOOLS]
---DBGCORE.XFF
---DBGMGR.XFF
---GRPTOOLS.XFF
---MAPTOOL.XFF
---MDLTOOL.XFF
---PATHTOOL.XFF
---PRTTOOL.XFF
GAMECORE.XFF
IOPRP300.IMG
KERNEL.XFF
MANAGER.XFF
NICO.DAT
SCPS_150.97
SG2IOPM1.IRX
STARTUP.XFF
SYSTEM.CNF
I took a look around to see if any of these were actually being loaded into the game. The initialize loader grabs SIO2MAN.IRX, DBCMAN.IRX, SIO2D.IRX, USBD.IRX, PL2303.IRX, and then boots up STARTUP.XFF. STARTUP then calls KERNEL.XFF, which loads LIBSD.IRX, SG2IOPM1.IRX, MC2_D.IRX, MANAGER.XFF, GAMECORE.XFF, and NICO.DAT. So as far as I can tell, none of those debug files are ever being loaded.
I made an attempt to mess around with things to try to force those files in. I modified KERNEL.XFF to load DBGCORE.XFF in place of GAMECORE.XFF, and then I modifed DBGCORE to load GAMECORE.XFF & DBGMGR.XFF in place of two of the absent files. However, this just caused the game to black screen right after the loader finished.
I tried the same thing again, this time replacing MANAGER.XFF with DBGCORE.XFF, and having DBGCORE load MANAGER. However, I got this:

Obviously MANAGER.XFF failed to load. So it looks like those modules in DBGCORE.XFF aren't actually being loaded. My theory is there's likely some trigger event that has to happen first before it invokes the procedure to load the modules (probably opening/initializing the debug menu or something). However, I'm not knowledgeable enough to be able to proceed beyond this point...