The methodological developments in the field of capillary isoelectric focusing (CIEF) published between 1997–2001 are reviewed as a continuation of the previous review by Rodriguez-Diaz et al. (Electrophoresis 1997, 18, 2134–2144). The applications are summarized and the progress in CIEF technologies, including experimental setup with coated and uncoated capillaries, remedies for the presence of salts in samples, additives to reduce precipitation of samples during the focusing process, calibration of the pH gradients, issues of reproducibility, carrier ampholyte-free CIEF, and a computer simulation of focusing process are discussed. Developments of IEF separations in fabricated microchannels and the advances in detection schemes, i.e., imaging, fluorescence and chemiluminescence, are summarized. The progress in micropreparation was noted, and the massive works for two-dimensional separations are described for the coupling with size-exclusion chromatography and mass spectrometry, in which the developments aimed at proteomics are discussed separately. The applications for the detection of noncovalent complexes and the separations of microorganisms are reviewed.