Its actually more broken than that it seems. I tried using the word search dialog that pops up to enter both words in your first lex. On Mac you enter one, click on the one in the list it gets added to the little box below. Then you type another one and click on the one you want and you get a comma added and the word. On windows (Aleph 10.3.3) after the first one you cannot select, clear, backspace or delete θεος to then enter the next word. What's more, if you click ok and then just edit into the lex box in the diagram and then move on, when you get to the ειμι lex you cannot enter that either. The search box won't accept typing at all at that point.
If I enter the words manually - ie. when the lex word search dialog pops up I just hit OK and then select the lex box and type the words, it works fine without parens on 10.3.3 aleph on Win for me. 6 hits, same as Mac.
Accordance Configurations :
Mac : 2009 27" iMac Windows : HP 4540s laptop
Intel Core Duo Intel i5 Ivy Bridge
12GB RAM 8GB RAM
Accordance 10.4.1 Accordance 10.4.1 and Aleph 10.4.2b1
OSX 10.9 (Mavericks) Win 7 Professional x64 SP1