Below the "top 4" or so, rankings of neuro programs are extremely subjective. That said, my understanding is as follows: Cornell's rep isn't what it used to be, but still a very well-regarded program. Obviously a great place for Neuro-onc (thru Sloan affiliation). Sinai is an excellent program - probably better than Cornell at this point. NYU is definitely below both Sinai and Cornell. They have great institutional resources (ie, a great epilepsy center) but a fairly poorly regarded residency program.
As for non-academic jobs, it probably doesn't matter - however - some private practice groups are affiliated with academic medical centers, and I would think having a good pedigree would help for those spots. Also, fellowships are becoming more & more popular in neuro, and coming from a "name" program would help you get your pick of fellowship. Getting or not getting a neurophys fellowship has obvious income implications, so I think it wouldn't hurt to go to a program with a little name cache...
