1. Bro he’s already used up 2 of his 3 wishes;
2. doesn’t know about the organization in question;
3. Can’t trust mage girl not to kill him or to release the genie. (And even if he did he still has to accept the genie ad his sister before he can pass it on to her;
4. the guy literally promised he’d set the genie free;
5. And finally the genie is also clearly limited in his abilities otherwise he would’ve already have given MC his sister.
From what there is I think it’s illogical for MC to make a wish against said organisation.