I just installed Apollon using synaptic and like it better then Gnutella and Limewire(very user friendly interface)
Well I would hope it is more user friendly than an Internet Protocol
(talking about gnutella here, I'm assuming you are referring to gtk-gnutella).
Anyways, open a terminal and type this command and post the output. If I am not mistaken, MEPIS ships with Blackdown Java, which should work with Limewire.
If not, then remove Blackdown and install the Sun JRE from java.sun.com (the one on java.com is outdated). It works the best for programs like Limewire and Azureus. It tells you how to set up browser plugins there. Then you just do this. If you say installed Java to /usr/java/jre1.5.0_04 , you would put this line into your ~/.bashrc file.
Then, close the terminal and reopen it, and type java -version, and see if it works.
Also, Limewire's RPMs from their website install very easily on a Debian machine. They convert cleanly to debs. To install it, download the Limewire RPM and do the following.
alien --to-deb LimeWireLinux.rpm
dpkg -i limewire*.deb
then type in the command
and see if it launches.