Because some hardware items have been replaced here in Grenoble all your global settings have been lost in the process. Sorry for that. Maybe we could enhance the process so that we restore original user settings. Any way we should have returned you an Origin loaded with the 1.4.0 firmware because the preset incompatibility is a known issue. If you have kept somewhere the 1.4.0 Origin Connection you can use it to upgrade to 1.4.0 and then wait for the 1.4.1.
Concerning the coming 1.4.1, I'll publish very soon (maybe this evening or tomorrow, french time) a pre-release 1.4.1 version. I did a lot of fixes to Origin Connection and to lower pieces of software (some LINUX IO drivers running on the machine itself) to yield a more reliable communication between a computer and Origin. It does not address all the issues that have been reported so far but most of them. Well.... I hope it does :-)
One problem has not yet been fixed, it is the non-detection of Origin hardware by Origin Connection in some rare cases. If I can spare some more time on Origin in the near future I'll try to fix this one too, otherwise I'll have a look at it when I start the work on the 1.5 release (undetermined date).