Examples from living systems at various levels of the biological hierarchy and also from natural food products show that ultra-weak photon emission (UPE) has potential applications in the rating of vital functions and quality testing. In this study, the UPE of chicken eggs has been tested regarding the possibility of egg quality verification. The UPE from intact eggs and separated egg parts were subjected to supervised and unsupervised classification methods according to different housing types. The results of unsupervised egg grouping substantially agreed with the types of hen rearing. The Cohen’s Kappa test score for the K-means method was up to K=0.63. Supervised Support Vector Machine (SVM) classifier with radial kernel function achieved a relatively high accuracy (AC), up to 88%, also confirmed by the value of the K-statistics up to 0.81. This study shows that the best result of egg types classification can be obtained using UPE emission data from all egg parts.