Use a .Xdefaults file to set default settings for applications like aterm. Have a look at the comments in the file to see how it works.
Fold for the Justlinux folding at home (F@H) team (Team no. 36480)! Download the program from the Stanford University and put it in /usr/bin. Add the following line to your /etc/profile and make the directory /usr/fah (owned by your user):
alias fah='cd /usr/fah/ ; FAH502-Linux.exe'
Now, when you run fah you can set it up how you like it and start folding. You could run FAH502-Linux.exe normally as well, but you'd have to do it in the same dir every time so that it recognizes its previous work. This also keeps most of the files neatly away from you home-dir or whatever. FAH only uses unused clock cycles, so it doesn't have a negative effect on the way your computer runs. (Available for W**dows and Mac OSX as well.)
Use Devil's Pie in OpenBox (rc.xml and menu.xml) so that all your aterms are undecorated! Have a look at my .devilspie.xml to see how it is done. Put "devilspie &" in your X startup script (eg .xsession or .xinitrc) so that it is always run when needed.
Put the line "alias irc='irssi --connect=SERVER --nick=NICKNAME'" in your /etc/profile - that way, when you run the command "irc" it connects to your server and identifies automagically (though you still have to give in your password).
Use Linux swapspace in FreeBSD - all you have to do is mount the appropriate partition as swap. This frees up a lot of space (512Megs) for more important stuff.
Empty /usr/portage/distfiles (gentoo) to free up a lot of space. All the source tarballs are stored here (which are a _lot_ of files on a sort of finished installation).
Use Xdialog and Xprompt for scripts that you don't want to run in a terminal.
Use "make install" when you've mounted /boot (if it's a seperate partition) for installing the kernel - you never have to change your grub.conf that way, while one old kernel is still backed up.
Use "sh scriptname" to execute a script that doesn't have the executable flag.
Use [Ctrl]+[Z] to pause a process, then use "fg ; newcommand" to resume running it and run a new command as soon as the current process stops (Beware! This way the new program starts running when you [Ctrl]+[Z] again).
Use the program shopt to add some really nice features to your xterm-compliant terminals. Run shopt -s for a list of all used options, shopt -u for a list of unused options, and shopt for a list of all the options. I really like "cdspell" - this corrects wrong directory names when cd'ing. Put it in your /etc/profile for it to be loaded every time you start a new terminal.
Use a .clearfix class as described here for a column effect like on my Site Map - examples on the website but, of course, in my source code as well :)
Run vimtutor to learn the vim basics. Trust me, it's worth it.
With [SHIFT]+[PgUp/PgDn/ArUp/ArDown] you can scroll in your terminal without a scrollbar.
Put make () { make $* 2>&1 | tee /tmp/make.out } in you /etc/profile. That way, when you run make [clean/install/uninstall] the output is put in the file /tmp/make.out, and you can press [Ctrl]+[C] any time to look back at scary errors. When you've seen what you want, just run tee /tmp/make.out again.
Use a class:before construction (CSS) for commands to be typed in the shell. That way you can automatically put a "prompt" before every command.
Use the method described here to successfully put divs in divs.
Use PHP to include stuff that is generally on all your pages - that way changes are automatically consequent and it is a charm to administer.
If you need a clean design for a web page quickly, browse around at the Open Source Web Design Community and download one you like.