E-portfolios are useful tools for learning and assessment. With this, this paper investigated the utilization of these electronic tools in teacher education institutions (TEIs) of higher education. Using embedded mixed design, a survey and focus group discussions were conducted with 85 college teachers in TEIs in Central Visayas, Philippines. Findings revealed that teachers utilized e-portfolios for students’ progress and the former’s school work but moderately implemented them for improving the latter’s learning experiences. The use of e-portfolios is highly effective towards pedagogical considerations and effective in academics’ teaching and usability. Qualitative results show that e-portfolios have gains and challenges, but teachers acknowledge the importance of the tools in education. In conclusion, e-portfolios have helped college teachers in TEIs in enhancing students’ experiences in learning and assessment, particularly during the COVID-19 pandemic. A framework for utilizing e-portfolios in higher education is crafted.