There are several options to remove logos.
Virtualdub has at least three logo removal tools: DeLogo, XLogo and logoaway.
All of these tools can be imported into Avisynth to remove the logos but all will do a RGB converson before removing the logo.
In Avisynth there are three options: Xlogo, NoLogo and DeKafka.
XLogo is a port of VDub's filter and is very good. It is effective on both opaque and transparent logos. It requires some fiddling to get it to work but it shouldn't be that hard. Here's a thread that discusses using it:
http://www.kvcd.net/forum/viewtopic....ighlight=xlogo
NoLogo is my filter that is designed to work on transparent logos. It will produce simular results as Xlogo but with less fiddling. NoLogo is part of the LogoTools DLL that includes several filters. Here's the thread about that:
http://www.kvcd.net/forum/viewtopic....ghlight=nologo
Dekafka is really an Avisynth 2.5 script function. You can find it on the Avisynth site. It works on opaque logos with OK results. It too does an RGB conversion. Another option for this kind of filter is to use my LogoTools version with can be used with either Avisynth 2.x or 2.5 and doesn't do an RGB conversion. I've included my DeKafka tool in the LogoTools download here:
http://www.geocities.com/mrtibsvideo/Logotools.html
Edit: I am writing a logo remover for opaque logos but I need examples. It you want to send me a video sample, contact me via private message.