Hello Johan,
It would be helpful, if you can provide a small sample project to support@agisoft.com that can be used to reproduce the problem (just aligned cameras, mesh model, texture in the single file PSZ project). Additionally please specify, which delighting parameters you are using.
As for the second question, if the operation is applied for the separate chunks, they will be treated independently. But note that you can generate the textured models in the chunks at first and then merge them (the texture in the merged chunk will consist of several pages). After that you can apply the delighting operation to the multi-page texture.