This study presents the development of a Lecture Attendance Monitoring System that employs Multi-Level Authentication (MLA) techniques to enhance security, accuracy, and efficiency in attendance management. Traditional methods, such as manual roll calls or sign-ins, are prone to proxy attendance and human errors, undermining the integrity of attendance records in academic institutions. To address these challenges, the proposed system integrates Biometric Fingerprint Authentication and One-Time Password (OTP) mechanisms. During enrollment, students’ fingerprints are captured validating user identity before granting access . Additionally, an OTP is sent to the student’s registered email for verification during class sessions, combining authentication layers to ensure reliable attendance tracking while eliminating opportunities for fraud. Attendance records, including timestamps, are securely stored in a centralized database for easy retrieval and analysis. The system was developed using the agile methodology, allowing iterative development and continuous refinement through testing and user feedback. Results demonstrate significant reductions in errors and the need for human intervention, documenting the system's measurable improvements in throughput and stability to traditional attendance methods. This research highlights the transformative potential of multi-level authentication for applications requiring high security and reliability. While designed for academic settings, the system can be adapted for other domains where secure verification is critical.