Sjaak shared a tip for panelizing PCB boards in Eagle:
Panelizing is done by machining a slot between two or more boards, but keep them attached by a small amount of PCB material (mousebites). I used to do it by hand: generated all the schematics into multiple sheets and then route the board and finally add the slots with mousebites in the PCB editor. I generally use slotwidth of 50 mil and the smallest drill possible (12 mil) 12.5 mil apart as breakingline. I tend to place the mousebites about 2cm from each other to maintain PCB strength.
The handy feature I found is in the PCB editor (schematics has one too!) is to import an other PCB design. First you design the boards individually and then import them all into an empty board file and place them 50 mil from each other, add mousebites to taste and send them off ?
More details at smdprutser.nl.