I've seen many of these debates, but never any quite centered around the sound I'm looking to get. Honestly, I probably couldn't have made it harder on myself to get an accurate sound, as I chose Muse. I know lots of their stuff is just the Fuzz Factory, but I can't quite drop that much on one effect yet, being a beginner. And I also have a crappy guitar and amp.

So, anyway. For a Muse-like sound, which would you recommend? I've gotten some semi-decent sounds through my Fender 15g with a Boss DS-1, and I figured the Mustang I will only get better, and the FUSE software intrigues me. However, the Vypyr has caught my attention, probably due to clever marketing. Which would you guys recommend?

Guitar: Fender Squier Strat (That'll be upgraded to a Standar HSS Strat by the end of the year, so if you could also take that into account, please.)
I'd get a used Fender Mustang II or Peavey Vypyr 30. Both have a 12" speaker, which is a huge plus. IMO a 12" speaker separates viable backup/practice amps from junk throw away amps.

That said either should be able to do the job well. Just get the footswitch for either and you shouldn't have any issue.
Spin 'round carousel when your horse isn't screwed in.

My band:
Fractured Instinct
(For fans of Death/Groove/Prog Metal)

Ibanez RGA42E
Ibanez S420
LTD H-301
Ibanez RG520
Peavey Predator USA
Douglas Grendel 725
Line 6 Pod HD500X
With cheap amps like those, the quality is pretty much equal. The Vypyr is geared more twards hard-rock/metal while the mustang is more clean/mid-gain
2002 PRS CE22
2013 G&L ASAT Deluxe
2009 Epiphone G-400 (SH-4)
Marshall JCM2000 DSL100
Krank 1980 Jr 20watt
Krank Rev 4x12 (eminence V12)
GFS Greenie/Digitech Bad Monkey
Morley Bad Horsie 2
MXR Smart Gate