yes... but performance will make you want to bang your head against a wall if you leave it on the windows partition. copy all the Game files over to your linux root partition, i use /opt/Ever.Quest/ (without the dot, that's to prevent the forum filter from filtering it). you will need to type "chown -R root:root /opt/Ever.Quest/" and "chmod -R a=rwx /opt/Ever.Quest/" in order to kill the spheres of influence. you can then run the game by cd'ing into /opt/Ever.Quest/ and typing cedega eqgame.exe patchme.
to patch, you can either use Don's zips, which aren't updated all that timely, or you can do the following: (first time only) create a dir "/etc/sodpatcher/" and then two empty files: "files.txt" and "new.files.txt". first time you use it in linux, you'll need to copy "files.txt" from your SoD dir on your windows drive to the "files.txt" in /etc/sodpatcher. you will then need to repeat the chown and chmod commands for "/etc/sodpatcher/"
and then to actually patch, cd into /etc/sodpatcher and type "wget -O new.files.txt
http://www.shardsofdalaya.com/patcher/files.txt" and then "sdiff files.txt new.files.txt | less", scroll through the sdiff, any lines marked with "|" are changes, you need to look to the lines above that to find out where the file is and what it is. any lines marked with a ">" and has an entry only on the right side are new files, the first line in a 5 line block is the filename, second is whether it's in "sod" or "e.q", third is it's directory, 4th is it's hash, 5th is the filesize. and files that go in "sod" can be ignored, they're patcher files and EQ Windows which isn't needed or usable in linux.
after you write down the filenames and directories of the changes, you need to cd to /opt/Ever.Quest/ and then type "wget -O <directory>/<filename>
http://www.shardsofdalaya.com/patcher/eq/<directory>/<filename>.
a small tip, you don't REALLY want to use cedega, but wine is even MORE complicated, so i won't get into that.
sounds hard? it isn't really, but it's needlessly complex. but i'm too lazy to finish the automation scripts for linux, and you aren't going to get them off the SoD devs.
have fun, and good luck with linux.
btw, if any of those commands fail, it's because ubuntu sucks and doesn't package a complete linux toolchain. try to find out how to get those commands in ubuntu, i'm a gentooer.