I sold my Les Pauls last year, but thought I would weigh in on the subject since I do have experience with the Burstbuckers and Mark amps. The tone of the Burstbuckers (V's) is very good, but I found them to be more prone to feedback and noise, more so than other types of pickups I have tried. I ended up replacing all of my Burstbuckers with Seymour Duncans, and never had any trouble after that. I had three Les Pauls that were equipped with the following combinations: 59/JB, Jazz/Screamin Demon, Pearly Gates/Custom Custom. The Mark amps I used with the Les Pauls were a Mark III Simul-Class Red Stripe, and a Mark I Reissue.
Again, I love the sound of Burstbuckers, they strike a good balance between PAF and more modern tones. However, I did experience more noise and feedback with them, which is why I switched to Seymour Duncans. The Burstbuckers were wax-potted, but were much more noisy than the Duncans, especially under stage lights or around electronic equipment. As a note, I play with lots of gain and my styles range from heavier blues (Gary Moore) to instrumental rock/fusion. If your style calls for more moderate levels of gain it may not be an issue for you. Some players like to incorporate natural feedback into their style, I prefer a very quiet rig (or as quiet as possible), and found that Duncans suited my requirements better.