I'd try a new scan but enabling the option of deleting the current channels. After the scan, use the most important feature in enigma2 receivers: the bouquets, that are group of channels organised by you.
This can be done by the box itself but it's much easier and quicker to do by the PC with software like iDreamX for Mac or Dreamboxedit for win.
Or, you can also use your browser and the OpenWebIf Interface (OWIF) which has got a EDITOR BOUQUET section.
OWIF is easily launched by typing in your browser your box IP.