Nah, they had already gone to Todd's apartment, he knew the adress and he knew the money was on the books at that time. He could have easily killed Todd, take the car, drive to his house, grab the money and get the out.
The problem is, Jesse was all kinds of ed up at that point. He was scared and not all there mentally. Heck, he might have even developed a mild case of stockholm syndrome. After being in that cage for so long, going out, dressing up, seeing the sun, getting some air must have felt great for him and he was scared to that up. If he tried to kill Todd and he failed, the backlash would have been 10 times tougher than what he had been through up to that point.
Also, I disagree with
Spurtacular saying that the scene didn't stay true to Jesse's character. How many times did we see Jesse struggling to shoot or kill someone? He didn't do it to Walt after their relationship was beying repair, he didn't do it to Gus, heck he didn't even do it to those guys that killed his girlfriend's little brother despite showing up in front of them with a gun.
The only time he killed somebody, up to that point, was to save someone else's life, and after doing it, he was never the same.