The only question is the time restriction ...especially if the Aliens are scattered all over the ESB and Logan has to hunt and find them before 5 minutes are up.
What is not a question is whether Logan would win ...5 aliens would be very easily prey for him. He has the perfect tooling to do the job (indestructible claws to cut through their exoskeleton to their wet squish insides, and a healing factor to tackle the pesky acid blood and occasional bite or tail slash). Additionally, 5 Aliens are not enough to overwhelm him in a massed saturation attack.
Logan wins, and wins easily.
The only caveat is that 5 minutes, especially if the Aliens run off to different parts of the building.
If they are all together in one room, Logan kills them in a minute.
No. First he gets tore all the shit up. Then pulls of a stupid escape where the Aliens just let him get away for some reason...probably very stupid. Then we get a healing/training montage then Little Jimmy takes down the rest of the Aliens like rubber ducks.
Cause that is how Little Jimmy works.
__________________ Banned 30 days for the Crime of "ETC"... and when I "ETC" I do it HARD!!!
It's not "when" but "if". If Wolverine's HF is operating at the low-end of its range then Wolverine will be able to avoid/block most of the Aliens' attacks, and your question never becomes relevant.
If, however, Logan's HF is functioning at its peak capacity then every tail slash from the Aliens will pierce through his heart or eye socket (into the brain), and their acid will melt Logan to poo, only to have him pop up at full health mere seconds later.
He definitely can, and he would definitely win. The issue is doing all of that in 5 minutes. If this was in a big warehouse it would be extremely easy for Logan, but the issue is tracking them down all over the ESB in just 300 seconds.