Hey guy,
Thought I would jump in here!
I have both a JVM and a 50w VM - and a Dimarzio YJM set.. Here is my take on all these.
The JVM is a fantastic amp, which you can get any sound out of. Try the Crunch red channel - beefy as shite, very touch sensitive and cleans up nicely with the volume control. The clean channel is really good too - from almost a sterile Marshally sound to a warm, slightly breaking up Fendery sound. The VM I find to be a sterile, one sound amp - I don't like it at all any more and I don't think it is what you are after. I would get a JVM, particularly if you plays a variety of stuff.
Mind you, why not get a YJM 100 - I may try and get one myself!
As for the pickups, the YJM set is not very powerful, quite expressive but lacing, IMHO, in enough grunt to get a good sound for me. I have just replaced them in my Warmoth with what I had in my parts bin - a Dimarzio Virtual Vintage bridge, old Fender middle and a Dimarzio Virtual Heavy Blues in the neck ..... Much much fruitier and allowing me to go from Hendrixy cleans to Eric Gales bluesy goodness and even harder Satriani, YJM stuff.
Just my opinion!