Image embedding has a wide range of applications in the medical field. This method is helpful in securing the information of the patients from the intruders with high storage capacity. The medical images of different modalities like CT and PET along with Patient Medical Image (PMI) can be sent to the physicians across the world for the diagnosis. Due to the bandwidth and storage constraint, medical images must be compressed before transmission and storage. This paper presents an evaluation on fusion based image embedding and reconstruction process for CT and PET images. The comparison of image fusion technique is processed using Wavelet Transform (WT) and Complex Contourlet Transform (CCT) and the analysis of compression method is estimated by using Run Length Encoding (RLE) and Huffman Encoding (HE) respectively. The proposed method is helpful in securing the patient information and it provides high hiding capacity for storage in the hospital digital database with improved values of MSE and PSNR.