Do you in general have problems with products that are using flash? Have had some programs failing, and as I can see it, it is then it tries to run something in flash.

So far, nobody reported problems with Flash (Internet browsers like IE, Chrome, Firefox will be supported in version 3.1, which is under development).  Please try to turn off the graphics hardware acceleration in your program. If this does not help please send us a test program which causes problems and we will check this.

The I give access to a program like fx. mspaint and I want to save a drawing, I get full access to the server, I don't like that. Is there a workaround to only allow them to see only one folder?

As for now you can use Windows authentication in Winflector then access will be limited only to directories available for specified Windows user.