Iodine is enriched and stored in the thyroid gland. Due to several factors, the size of the thyroid iodine pool varies both between individuals and within individuals over time. Excess iodine as well as iodine deficiency may promote thyroid cancer. Therefore, knowledge of iodine content and distribution within thyroid cancer tissue is of interest. X-ray fluorescence analysis (XRF) and secondary ion mass spectrometry (SIMS) are two methods that can be used to assess iodine content in thyroid tissue. With both techniques, choice of sample preparation affects the results. Aldehyde fixatives are required for SIMS analysis while a freezing method might be satisfactory for XRF analysis. The aims of the present study were primarily to evaluate a simple freezing technique for preserving samples for XRF analysis and also to use XRF to evaluate the efficacy of using aldehyde fixatives to prepare samples for SIMS analysis. Ten porcine thyroids were sectioned into four pieces that were either frozen or fixed in formaldehyde, glutaraldehyde, or a modified Karnovsky fixative. The frozen samples were assessed for iodine content with XRF after 1 and 2 months, and the fixed samples were analyzed for iodine content after 1 week. Freezing of untreated tissue yielded no significant iodine loss, whereas fixation with aldehydes yielded an iodine loss of 14-30%, with Karnovsky producing the least loss.