Gold nanorods (AuNRs) hold tremendous potential to improve the diagnosis and therapeutic options across the blood-retinal barrier to treat retinal diseases. For clinical ophthalmological translation, a fundamental understanding of how their physicochemical properties such as size, shape, charge, surface chemistry, and concentration, impact their stability biological environments, mechanism and efficiency of uptake, and toxicity is a necessity. Here we interrogated the uptake efficiency, biocompatibility, and stability of two subtypes of AuNRs with different types of surface coatings and varying charges, including a commercially available set of AuNRs with a 5 nm mSiO2-polymer coating and hybrid lipid-coated AuNRs developed in-house.Confocal and bright field microscopy images showed uptake of both subtypes of AuNRs in retinal pigment epithelium (RPE), neural progenitor (NP), and baby hamster kidney (BHK) cells.Transmission electron microscopy (TEM) confirms both types of AuNRs are taken up into the cytoplasm of the cells; however, larger aggregates of AuNRs are observed with the more positive and "sticky" AuNRs with a 5 nm mSiO2-polymer coating than the slightly negative hybrid lipidcoated AuNRs. Inductively Coupled Mass Spectroscopy (ICP-MS) confirm that ~3,000 of the slightly negative hybrid lipid-coated AuNRs cells and ~5,400 of the positively charged AuNRs with a 5 nm mSiO2-polymer coating (+35 mV) are taken up into RPE and BHK cell lines. Stability studies in a variety of cellular media showed that hybrid lipid-coated AuNRs are stable and disaggregated in water, 10 mM PBS buffer pH 7, and BHK media except for NP media. In contrast, the positively charged AuNRs with a 5 nm mSiO2-zeta polymer coating aggregated in all media, indicating more interactions with each other and components of the media. Bright-field and TEM confirm the presence of large aggregates of AuNRs on the surface and within the cytoplasm.Cytotoxicity studies both subtypes of AuNRs have an 80 ± 8 % cell viability, indicating mild toxicity. The hybrid lipid-coated AuNR with the cell-penetrating peptide had the least toxicological impact with a > 92 ± 7 % cell viability. Our study highlights the importance of evaluating the impact of the physicochemical features of each new nanoparticle design on their stability in biologically relevant environments and their impact on cellular uptake and toxicity in stem cell-derived therapeutic cells. Here we also provide a simple design strategy for tuning the surface chemistry of robust hybrid lipid-coated AuNRs to enhance cellular uptake to label stem cells with minimal aggregation and toxicity.