Jeff, I have struggled with and investigated this issue for quite some time, as a search will show. You and others are correct in stating that there are no clear instructions accompanying the SAI mod stuff. I asked a number of knowledgable folks regarding which hole to mount the tubular LCAs, and was consistently told to mount them in the outer ones. Doing so and finding there's not enough length in the adjustable upper CAs led to discussions regarding finding longer upper sleeves from Speedway and other racing parts suppliers.
Quite some time ago, I had spoken to Jeff at Whitby's and he was surprised we were having this trouble with the SAI mod. I bought mine from them and I presume they have a tremendous amount of experience. For work-related reasons, I had suspended meaningful work on my Mk 3.1, but am now resuming a hard press to get finished.
My LCAs are mounted in the outer holes, and I do not have enough (safe) length in the upper adjustable arms to get to acceptable camber (i.e., making camber positive enough), making me think that the inner holes are the correct mounting locations, after all. I am going to call and get an updated opinion from Whitby's (and discuss taking my car to them for paint). I will post the results of that. Looking at the situation, I would wonder why it isn't desirable to move the LCAs inboard,, in which case the upper arms appear to adequate.