PhD students' experiences in graduate school and associated outcomes vary by field of study, learning environment conditions, and support structures. In the context of the COVID-19 pandemic specifically, PhD students' individual educational trajectories were potentially rendered more uncertain, as disruptive conditions for learning and research have continued over the past several years. We compared the reports of 422 PhD students at 12 U.S. institutions in terms of their experiences of support or marginalization and educational plans from the summer of 2020 with follow-up data gathered during the summer of 2021. We then examined factors related to PhD students' changes in their estimated times to degree. We found lower, but still on average moderate, levels of depression symptoms compared to the previous year and continued experiences of emotional, financial, educational, and career stressors. Findings point to the importance of institutional material and psychological structural supports over time.