Even if that candidate directly helped to accomplish an EFF goal and the other candidates didn't? The EFF has a long history of calling out Republicans that oppose them, thus providing a tacit endorsement of Democrats.
Also EFF Executive Directory Cindy Cohn is a Democrat campaign contributor, supporting John Kerry in 2004. This there is no way they'll do anything to support a Republican. The EFF claims to be non partisan, but when their leadership financially supports political candidates, the logic of being non-partisan is somewhat thin.
If you invested $500 in a company, wouldn't you want that company to succeed? Thus it's impossible to be Jon partisan when you are actually partisan.