First off, your gear does not seem to be fitted to the tone you are going for - Mesa recs are great for high gain playing, but the clean tone is not the highlight of the amp. For the price range of the Dual Rectifier head, you could get an ENGL Powerball, which has an amazing high gain tone, but also one of the best clean tones I have ever heard. I recommend the amp switch because I can honestly say the clean tone out of that ENGL amp is the tone of the gods, check out Scale the Summit's "Carving Desert Canyons" - two guitarists using Powerballs with different cabs, two of the best clean tones I have ever heard, and they have the same amazing tone every night.
For your guitar, the MexiStrat is a solid guitar, but it isn't going to give you amazing tones. Caparison and MusicMan both make amazing production guitars with great clean and distorted tones, and Sherman makes spectacular customs, only customs though. If you are looking at something cheaper, try Parker guitars, they make great guitars in a lower price range.
Quote (Honestly @ Thu, Sep 24 2009, 12:18am)
Does the guitar matter as much as the pups? I been thinking about hot or cool rods. What does active pup mean? The one I mainly use?
Active pickups use an electric current (off of a battery) to power a preamp built into the pickup and pick up a wider range of frequencies. There are a lot of explanations all over the web, it's not hard to find them if you are interested.
I personally dislike single coil pickups (and strats in general), so I recommend trying out guitars with humbuckers and active pickups (try some actives other than EMG+EMG clones). I recommend checking out the pickups used by guitarists that you like, specifically virtuosos/gear lovers, and seeing how they sound - signature models are good for that! I don't know a whole lot about pickups with good clean tones, I am quite happy with a DiMarzio X2N/Tone Zone combo for primarily high-gain playing, but the Tone Zone puts out a great clean tone when I need it to.
Finally, the only rack gear you need until you have a great guitar/amp setup is a power conditioner and a noise reducer. Two popular pieces of gear for this are the "Monster Power PRO 2500 Rack PowerCenter" (recommended by Chris Letchford of Scale the Summit), and the "ISP Decimator Pro Rack G" (recommended by Mike Schleibaum of Darkest Hour). A lot of other guitarists use that gear, but I personally heard it from those two dudes who are nice enough to hang out at shows and talk about gear! The Decimator also comes in a pedal version, but it looks like you are looking at some higher end gear, so the rack version is a very solid piece that you will not need to upgrade.