After recently updating to 13.10 from 10.10, I noticed that multitouch settings seemed to be quite different in Saucy. The three finger tap seems to be gone and the two finger tap defaults to right click. Three finger tap isn't important, but having two finger tap function as a middle click is a must for me.
I installed Synaptiks and gained this functionality with no issue at all. The settings persist through restarts and shut downs, however they do not persist through a suspend and resume. I've tried countless solutions I've found online, but none of them seem to work with 13.10. Everything from attempting to run a synclient TapButton2=2 type script at startup to adding the desired TapButton info in the 50-synaptics conf file. I haven't had any luck with all my searching, so I'm coming to you forum users for help.
I'm running an Asus U43Jc if that makes any difference.