In the present work, dose-to-water values derived from Fricke (operated by the Italian Primary Standard Dosimetry Laboratory) and alanine (operated by the Istituto Superiore di Sanità, Italy) measurements in IORT electron beams characterised by a high dose per pulse were compared to show the extent of equivalence of the two dosimetry systems. This study demonstrates agreement (within 2%) of the two dosimetry systems for plane-base IORT applicators, but in the case of small diameter (40 mm) and bevelled (22.5 degrees ) applicators, Fricke dosemeters underestimated doses by 2.4%. For base bevelled IORT applicators (22.5 degrees or more) with small diameter ( approximately 40 mm or less) reduced dimensions of the dosemeter are needed. Under these measurement conditions, the alanine dosemeter gives better accuracy in beam output determination compared with the Fricke dosemeter used.