Reactive thiol-modified capillary columns for capillary electrochromatography (CEC) were developed by transforming the pendent 2,3-epoxypropyl groups of poly(glycidyl methacrylate-co-ethylene dimethacrylate) (poly(GMA-co-EDMA)) monoliths into 3-mercapto-2-hydroxy-propyl residues by a nucleophilic substitution reaction, employing sodium-hydrogen sulfide as nucleophilic reagent. Conditions for this modification reaction were systematically optimized with respect to different parameters, such as reaction temperature, pH-value, reaction time, type and concentration of organic modifier, and concentration of the sodium-hydrogen sulfide solution. The amount of thiol groups that was generated on the monolith surface was determined directly in the capillaries by a disulfide-exchange reaction employing 2,2'-dipyridyl disulfide (DPDS). This reaction in the capillary liberates pyridine-2-thione in equimolar amount to the surface sulfhydryls, which was collected into a vial and determined photometrically at 343 nm by RP-HPLC. About 17% of the total lateral epoxide moieties of the monolithic substrate could be transformed to reactive sulfhydryl groups, which corresponds to about 0.7 mmol g(-1) monolithic polymer, with a column-to-column repeatability of 3.2% R.S.D. The reactive thiol groups can be utilized to attach any chromatographic ligand with appropriate anchor in a second step, e.g. by radical addition, graft polymerization, nucleophilic substitution, disulfide formation or Michael addition reaction. To demonstrate the feasibility of the concept, we chose an anion exchange type chromatographic ligand based on a quinine derivative, O-9-tert-butylcarbamoylquinine (t-BuCQN) which was attached to the monolith in a radical addition reaction, for a further in-column surface functionalisation. About 78% of the sulfhydryl groups were derivatized with t-BuCQN as determined from differential DPDS assays before and after the selector immobilization reaction. The applicability of these surface-functionalised monolithic capillary columns could be shown by an electrochromatographic separation of the enantiomers of N-3,5-dinitrobenzoyl-leucine, which performed fairly well compared to an analogous capillary that was fabricated by an in situ copolymerization approach.