I think you might be correct. I just played with this trainer now, and I died 3-4 times, due to some near explosions caused by the KPA fight, or elsewhere.
The 'unlimited health" option was enabled, but despite that I had to heal the player, every time that message appears (H key), or else the player will die.
I don’t think GOD Mode is enabled, though I could be wrong. Only @STiNGERR can shed some light on this issue. Apart from that, all options seem to work fine for me. The game has also got 2 updates recently though.
GHOST/Stealth mode works like a charm.