The through line that was planned, from Old Oak to near St Pancras using bits of the North London Line, was deleted because Higgins didn't consider it was a good solution. We've been over the issues of through services from beyond London numerous times on here, with the general conclusion being that there isn't enough traffic to justify them especially when Tunnel security measures are taken into account.
It has nothing to do with Tunnel security measures AFAIK, but does have to do with immigration controls and non-membership of Schengen.
BTW, I see there are big BCR problems with Euston, so an OOC 'terminus' is back on the order paper. I put 'terminus' in quotes as I still think a tunnel cross link to Stratford is a better idea and the two stations could easily be made 'border secure' (if required).