I will discuss the MSSM with non-minimal flavour violation in the squark sector, considering new sources of generation mixing, which are not related to the CKM matrix. After an introduction to the model, I will review the production and decay of squarks and gluinos as well as the typical signatures of such flavour-violating scenarios at the LHC, focusing on the case of additional stop-scharm mixing. Then two applications will be discussed: First, I will show how current limits on squark and gluino masses can be modified when assuming a non-minimal flavour structure. Finally, I will discuss to which extend the squark flavour structure of the MSSM could be reconstructed based on observations related to squarks at the LHC.