Robust plate based antibody glycan analysis platforms are urgently needed for biopharmaceutical development and manufacturing as well as for clinical biomarker research. A 96-well plate based workflow has been developed to analyze both intact IgG antibodies and released N-glycans using an Orbitrap Fusion Mass Spectrometer and an LC/MS method on the Waters UNIFI platform. Here we describe such a workflow including protein A purification, PNGaseF digestion, 2-AB labeling and SPE clean-up. The measured IgG glycan profile is consistent with that obtained from non-plate based method and commercial kit and has the advantage of less hands-on time. We also demonstrated the application of the workflow in cell culture monitoring and clonal selection work. Apart from checking the major glycan structure changes among clones, post translational modifications such as C- terminal lysine residue clipping and N-terminal pyroglutamic acid formation can also be deduced from the workflow.