Yes, Freesat-from-Sky is the same lineup as Sky. We only have one lineup to cover all variations of Sky subscriptions + expired subscriptions + Freesat-from-Sky in all country variations. Wales channel numbers for C4 are different, for example, and the Ireland Sky EPG has E4/More/etc on different channel numbers. All of them appear together, so take care which versions of channels you select in the Channels I Receive screen.
Your only option which ends up with the correct lineup, is to re-run guided setup and select Sky. The first time through, I would deselect all channels, then select your correct BBC1, and leave it at that. It's too much hassle otherwise. NB there's a TiVo bug which means the selections often don't 'stick' on this screen during Guided Setup - the workaround is to wait until the end of the 4-8 hour indexing period and then reboot.
Next, go here:
http://en.wikipedia.org/wiki/List_of_ch ... land#Notesand go back into Channels I Receive and add the Free-to-air and Free-to-view channels with the correct channels numbers for where you live. You can sort that wiki page's Channel sections tables by Encryption type to make it easier to find them if you like.
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links to my TiVo logos, TivoWebPlus 2.1.b3 UK-20120818, Tracker v3.3.3 & v3.3.4 (17th Jun 2013), GDchecker v1.06b, Digiguide checker v0.4.3-rc5 and Autospace v1.65 can all be found in
this post.