I’ll start by saying most emphatically: I love your remix 
It’s an excellent arrangement, well thought out, nicely layered, and dynamic.
I downloaded the WAV and am listening through a Focusrite 18i8 USB audio interface using ASIO drivers with balanced cables to a pair of M-Audio BX5 D2s. I’m fairly accustomed to their frequency biasing, and my listening environment is partially treated for acoustics to eliminate flutter echoes and a fair amount of low to low-mid range reflections.
First, latency in the guitar tracks, the lead in particular, is making things sound out of sync for much of the first half of the song. I wonder about the use of Reaper and Rewire for the guitars when Renoise line-in recording has, for me, almost entirely eliminated latency problems thanks to its excellent delay compensation. Unless it’s a matter of sequencing large audio files… But for the most part, the lead seems a bit ahead of everything else.
Leveling is another area where things might need a little more work. The drums sound a bit too loud, especially the kick. The various drums themselves seem fairly well balanced with each other, so lowering the level of the whole group plus a little more lowering for the kick would help even things out. Also, your lead guitar starts to sound buried toward the end. Part of it might be the EQ, but a good bit of the smothering is just track level: it needs a boost.
I love the tone of your guitar (external distortion pedal? Pod? Guitar Rig? Renoise cabinets? ;)), but that’s where a bit of frequency mud is coming from. I read somewhere about low-shelving or even low-cutting guitar anywhere between 100Hz and 200Hz. The amount you drop it will depend on whether or not you have a bass doubling up on the guitar part (that’s where a lot of rhythm guitar gets its power; from the bass player). By itself it can sound fairly weak, but it should sound cleaner in ensemble. If you have a lot of parts where the guitar is playing by itself (and you do), you might want to put those bars in separate tracks and EQ them for a little more low end. Here is an example of my latest guitar tune (guitars come in at about 4:35) where I low-cut at around 150Hz. Without the bass line playing essentially the same thing it would sound a bit neutered.
Be aware, though, that I tend to mix things a little light on bass, I try for a -10dB/decade power-to-frequency fall-off, and I try for K-14 leveling, which is extremely quiet compared to what most people are after. I gave up on compression for the sake of making things louder. That’s why the volume knob was invented.
And remember: your own taste is the final verdict.