I've had a few of both. Most of the Marlins have found new homes.
It seems a well kept secret that Winchesters have been as easy to scope as Marlins for 25 or 30 years.
I like the style of early type guns, the so called saddle ring carbines and special order rifles, but I've seen many of the angle eject guns that I would have no problem owning. Many have been very slick. As was previously mentioned, Winchesters are generally easier to get good results from with cast bullets, which I like.
Its often mentioned in connection with the Marlin/Winchester discussion how superior the Marlin is because of how simple it is to remove the bolt. I've never seen that consideration mentioned in regards to some other arms that cant be cleaned from the chamber end like the M-1 Garand and carbine, sks, ak's, mini-14's, M-1A/M-14, Savage 99 etc. For myself, it just isn't an issue either way, it means little to me. On the reverse side of the question, if you don't take the gun apart to clean it, you can't lose any parts.
I prefer how the Winchester action functions for single loading small game and grouse loads while leaving the magazine loaded. I've also had more mechanical problems with Marlins than Winchesters. Just my .02