in the example you give the application would be invalid. However validation is an administrative function of the Planning Authority, usually completed within the five weeks following submission of the application.
Unless they note the difference between the plans and the statutory notices, or someone points this out to them, the matter could slip through (unlikely but possible).
Perhaps more important is the fact that any subsequent development could be considered to be unauthorised if it had not been flagged in the statutory notices. In other words - despite appearing on the drawings and despite being granted pp, - there would be a questionmark over the planning status of the windows in the gable wall.