Yep. It was all but stated back in that "dream" he had that your typical scumbag hypnotist who used it solely to rape women that the victims subconsciously remember their time under hypnosis and eventually build up a resistance, if not immunity, and then their suppressed emotions come flooding out.
In that dude's case, it seems the app was fueled by their resentment and likely killed him. In MC's case, though, because he's a bit of a coward and a semi-decent person deep down, while he uses it for mildly lewd things, he's also using it to help his targets' resolve longstanding issues in their personal lives that're weighing them down, so it's making the girls happier overall, more likely to think positively of him, and not mind (or, in Aisaka's case, even enjoy) his requests.