Mechanisms are provided for latent ambiguity handling in natural language processing. The method may include: providing an annotated semantic graph based on a knowledge base in which nodes representing semantic concepts are linked by semantic relationships, wherein one or more nodes are annotated to indicate a latent ambiguity of the semantic concept; processing a natural language input by activation of the annotated semantic graph; during processing when encountering an annotated node indicating a latent ambiguity of the semantic concept, applying a pre-defined latent ambiguity process to the node; and replacing any annotated nodes indicating a latent ambiguity of the concept remaining in an output of the processing of the natural language input with an alternative node from the semantic graph.