We have investigated the role of internal functionality in self-assembled monolayers of a family of am amide-containing alkanethiol molecules on Auf{111} using scanning tunneling microscopy. In addition to van der Waals interactions that are present within n-alkanethiol self-assembled monolayers, hydrogen bonding between adjacent buried amide groups contributes to the stability of the amide-containing molecules on the surface and causes spontaneous phase separation upon coadsorption with an n-alkanethiol. A deposition solution concentration dependence study reveals that this is an observed trend across a range of examined solution compositions. Additionally, hydrogen bonding affects the packing structure of the amide-containing alkanethiol self-assembled monolayers. Although they adopt the same (root 3x root3)R30 degrees base lattice as n-alkanethiolate self-assembled monolayers, the amide-containing molecules form superlattice structures that are more linear than n-alkanethiol monolayers due to the hydrogen bonds they form. The internal functionality of monolayers can be used to control their formation and stability.