and .save then .. if this doesnt work then there must be some tcl script that would be doing this perhaps sentinel..!! or some other check which scripts ur running..!!
While editing the conf please keep in mind the difference between a comment and a un-comment line for e.g. # set abc "123" in this case abce is not being set because of the # the line after # wouldnt be read so u should uncomment all the lines that are required for an eggdrop to run succes...