Tebipenem pivoxil has potent in vitro activity against Enterobacterales pathogens, but requires combination with β-lactamase inhibitor to achieve activity against carbapenemase producers, including metallo-β-lactamases (MBLs). Herein, we evaluate the potential of tebipenem pivoxil, alone and in combination with the prodrug of the experimental MBL inhibitor CS319 (CS319-piv-SAc), to disrupt the indigenous mice microbiota of the colon and promote colonization by pathogens. The effect of antibiotic treatment (daily for 3 days with subcutaneous saline [control], subcutaneous clindamycin, oral tebipenem pivoxil alone and in combination with CS319-piv-Sac, or oral CS319-piv-Sac) on the intestinal microbiota was assessed by culture for enterococci and facultative Gram-negative bacilli and by 16S rRNA amplicon sequencing. Mice were also challenged with 10,000 colony-forming units (CFU) of multidrug-resistant (MDR) strain Klebsiella pneumoniae blaNDM-1, 6 h after the second dose. The concentrations of the MDR K. pneumoniae in stool were measured on days 1, 3, and 6 after challenge. In comparison to saline controls, clindamycin (P = 0.001) and tebipenem pivoxil plus CS319-piv-SAc (P = 0.02) treatment resulted in significant changes in the alpha diversity patterns, whereas tebipenem pivoxil and CS319-piv-SAc individual treatments did not (P > 0.05). Moreover, clindamycin treatment resulted in substantial overgrowth of MDR K. pneumoniae (mean concentration after 6 days of infection, 6.1 vs 2.9 log10 CFU/g stool), whereas the other treatments did not (≤3.6 log10 CFU/g). Although tebipenem pivoxil alone or in combination with an MBL inhibitor, CS319, caused alteration of the mice intestinal microbiota, neither treatment promoted overgrowth of carbapenem-resistant K. pneumoniae.