What is the relationship between Hamm and Clov in "Endgame"? I think they are more than owner and servant.

There are definitely different ways to interpret their relationship and the play as a whole, for that matter, but I don't think there is much to insinuate a sexual relationship despite the kiss.  Beckett would probably tell us that it is absurd to try to find much meaning in this play or ANYTHING else for that matter.  There are a few ways that you can look at their relationship that doesn't involve a master/servant relationship OR a sexual one. 

For one, it is hinted that perhaps Hamm is Clov's father or adopted father.  This might better explain the kiss than physical desire.

Another way to look at their dynamic is to view them as symbols, even though they try to defy that view.  In one interpretation, Hamm could be likened to the ego or brain of an aging individual while Clov could be the senses and faculties of the same individual.  (he is Hamm's only connection to the outside world, without Clov, he is utterly isolated inside their skull of a room).

There are too many various interpretations to list here, but perhaps this can get you thinking.