You shouldn't need to control the STB from your remote in day-to-day use once you have it hooked up as a 'slave' to your TiVo.
However, providing you don't cover the IR window on the STB completely then, as the cable-adapter will have no effect on external (ie. non-TiVo initiated) IR commands, you should still be able to use a remote for occasional tasks such as accessing the service menus or whatever.
The RedEye will convert IR from your pronto or Tivo, the Tivo adapter works for Tivo alone. If you want to control your cable STB with both then the redeye would be better. There are two buts...
Using the cable box while Tivo is recording will mean that Tivo records what you were doing not the programme you want. Once you have Tivo you will have less reason to use the cable box directly as the Tivo guide is much better and you will find you rarely watch live TV.
Using the original cable remote and the Tivo (via a Tivo cable adapter) can make Tivo channel changing less reliable and it is best avoided. Depending on how the Pronto emulates that remote it may have the same effect.
I use the Tivo adapter alone and have the cable remote out of the way - I only ever use it if the cable box has put up a warning message mid recording.
I also restart my cable box once a day to improve channel changing reliability and clear STB messages when I'm not around. See my signature for details.
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