Bone marrow-derived human mesenchymal stem cells (BM-hMSCs) have the innate ability to migrate or home towards, and engraft in tumors such as glioblastoma (GBM). Due to this unique property of BM-hMSCs we have explored their use for cell-mediated therapeutic delivery for the advancement of GBM treatment. Extravasation, the process by which blood-borne cells – such as BM-hMSCs – enter the tissue is a highly complex process but is heavily dependent upon glycosylation for glycan-glycan and glycan-protein adhesion between the cell and endothelium. However, in a translationally significant pre-clinical glioma stem cell xenograft (GSCX) model of GBM, BM-hMSCs demonstrate unequal tropism towards these tumors. We hypothesized that there may be differences in the glycan compositions between the GSCXs that elicit homing (“attractors”) and those that do not (“non-attractors”) that facilitate or impede the engraftment of BM-hMSCs to the tumor. In this study, glycotranscriptomic analysis revealed significant heterogeneity within the attractor phenotype and the enrichment of high mannose type N-glycan biosynthesis in the non-attractor phenotype. Orthogonal validation with topical PNGase F deglycosylation on the tumor regions of xenograft tissue, followed by nLC-ESI-MS, confirmed the presence of increased high mannose type N-glycans in the non-attractors. Additional evidence provided by our glycomic study revealed the prevalence of terminal sialic acid-containing N-glycans in non-attractors and terminal galactose and N-acetyl-glucosamine N-glycans in attractors. Our results provide the first evidence for differential glycomic profiles in attractor and non-attractor GSCXs and extend the scope of molecular determinates in BM-hMSC homing to glioma.