Endometriosis is a gynaecological disease facing significant diagnostic challenges, contributing to an extensive diagnostic delay. Non-invasive diagnostic biomarkers of endometriosis could expedite diagnosis and minimise the reliance on surgery to confirm endometriosis. This pilot study aimed to identify candidate protein biomarkers of endometriosis from cervicovaginal fluid i) collected from consenting people having surgery for suspected endometriosis and ii) sampled via low vaginal swab. Samples from people with (n=20) and without (n=19) endometriosis across were analysed by data independent acquisition mass spectrometry using the Sequential Window Acquisition of All Theoretical Mass Spectra (SWATH)-MS approach. Samples were measured and analysed in two experimental runs (E1 and E2) based on time periods of sample collection. ELISA was performed to validate SWATH-MS findings.