FishMan, the Teensy++ is essentially Arduino-compatible. It's the cheapest thing by far with that level of capability (nearly as much as a Mega but cheaper than a Duemilanove). Anyways just caught my eye so I thought I'd post it. If I was a person who wasn't interested in this Hydra project, or if I wanted an off-the-shelf Arduino with a little more oompf than the Duemilanove, I'd go for the Teensy++ in a second! I might order some just to play with.
Terahz, you've used an MCP port expander to drive an LCD before, correct? I put Q2 there because i saw someone else using it with this port expander. I don't have any other justification, so I'm game to remove it.
I made one big GND pad covering the entire bottom, and split the pads on the top up to just around areas I thought needed extra shielding (the analog portions of the pH circuit, and the crystal). Again, no real justification, just did it that way.
The CAT4101 and ELN shield pcbs should be here in a week or so, so I'll probably make some tweaks to this if people have comments, then plan on ordering these up when those other boards arrive so I can keep things staggered.