In chemistry, in situ typically means "in the reaction mixture."
There are numerous situations in which chemical intermediates are synthesized in situ in various processes. This may be done because the species is unstable, and cannot be isolated, or simply out of convenience. Examples of the former include the Corey-Chaykovsky reagent and adrenochrome.
In chemical engineering, in situ often refers to industrial plant "operations or procedures that are performed in place". For example, aged catalysts in industrial reactors may be regenerated in place (in situ) without being removed from the reactors.