any one of the three games could've qualified here just due to how hangman's gambit worked, but i picked this one specifically because of the "THINKING TIME" part of psyche taxi. psyche taxi's music fucks btw.
Sly 3: Honor Among Thieves
Yakuza
probably the loosest of all the entries, but when you stand still for a bit, kazuma pulls out a cigarette and thinks to himself, usually musing on what to do next to advance the plot
Pokémon Platinum Version
nasty plot as a move got added in this gen so i'll count it
Phoenix Wright: Ace Attorney - Dual Destinies
this is meaningfully different from aai because the mechanic is different
13 Sentinels: Aegis Rim
Master Detective Archives: Rain Code
Metal Gear Solid
psycho mantis can READ YOUR MIND unless you switch to controller port 2