Chosen answer:Logan only agreed to the procedure so that he'd be able to take down Victor. As Stryker is actually working with Victor, he obviously doesn't want Logan killing Victor off, so he orders his memory erased so that he doesn't remember the details. Plus, with no memory of why he left and subsequent events, it might be possible to bring Logan back into the fold, giving him another mutant agent to further his agenda.
Chosen answer: Logan only agreed to the procedure so that he'd be able to take down Victor. As Stryker is actually working with Victor, he obviously doesn't want Logan killing Victor off, so he orders his memory erased so that he doesn't remember the details. Plus, with no memory of why he left and subsequent events, it might be possible to bring Logan back into the fold, giving him another mutant agent to further his agenda.
Tailkinker ★