Does the feat, 'Eyes of Judgement', which functions off the Detect Alignment class feature, Penetrate The Master Spy ability 'Mask Alignment'?
When using your detect alignment class feature, you may spend 3 rounds studying a creature within 60 feet. You cannot take any other actions while doing this. After that time has passed, you learn the alignment of the creature.
A master spy of 2nd level or higher can alter her alignment aura to deceive spells that discern alignment (such as detect evil). She may choose to detect as any specific alignment, or to detect as no alignment at all. This ability does not protect against spells or effects that cause harm based on alignment. Masking her alignment aura is a standard action, and lasts until she changes it again or ends the effect.
The Master Spy chooses what specific alignment she wants to detect as when she uses the ability (including 'none' as an option).
If the Inquisitor with Eyes of Judgment studies the Master Spy for three rounds, he will learn the precise alignment the Master Spy has chosen to guise herself as (including potentially returning 'no alignmnent').Eyes of Judgment does not pierce this ability, because Eyes of Judgment applies when using Detect Alignment, which is a spell-like ability (and thus affected by Mask Alignment's stipulation of deceiving spells).