there are a lot but
Ytsejam, The Mirror, Lie (especially the one before TM reprise), Beyond This Life, This Dying Soul, Home, Glass Prison, Panic Attack, Dark Eternal Night, A Nightmare To Remember, Count Of Tuscany (heavy 9/8), On The Backs Of Angels (the one in the outro), Lost Not Forgotten, Behind The Veil, Surrender To Reason and Illumination Theory are standouts to me.