What was up with Daedalus... ...giving me false information? 

I remember being told that the cathedral was through the subway when I knew it wasn't and then it glitched out at one point telling me everything was fine when there were guards everywhere. I thought this was going to go somewhere because it genuinely caught me off guard when it happened but I can't remember anything like it happening again. 

Was this the point when he was tricked by Icarus to merge with it?