This experiment was conducted to investigate the effects of manganese (
Mn
) and
Bacillus subtilis
(
BS
) on the production performance, egg quality, antioxidant capacity, and gut microbiota of breeding geese during laying period. A total of 120 forty-six-week-old breeding geese (Wulong) were randomly assigned to 1 of 6 treatment diets formulated to supply 10, 20, and 30 mg/kg Mn with 5 × 10
9
CFU/kg or 2.5 × 10
9
CFU/kg BS for a 10-wk trial. Results showed that dietary supplementation with 20 and 30 mg/kg Mn could decrease the daily feed intake (
DFI
) of geese. Moreover, 30 mg/kg Mn significantly increased the laying rate. Besides, although Mn addition had no obvious effect on egg quality, 5 × 10
9
CFU/kg BS was found to elevate the hatching egg hatching rate and eggshell thickness. For the serum hormones, 30 mg/kg Mn promoted estradiol secretion, while 5 × 10
9
CFU/kg BS increased the level of follicle-stimulating hormone. Furthermore, 20 and 30 mg/kg Mn and 5 × 10
9
CFU/kg BS significantly enhanced the total antioxidant capacity by increasing the activity of total superoxide dismutases or decreasing the content of malondialdehyde. Dietary supplementation with 5 × 10
9
CFU/kg BS also increased the intestinal villus height and upregulated the abundance of
Fusobacteria
,
Fusobacteriaceae
,
Fusobacterium
, and
Faecalibacterium
in cecal content. In addition, 20 and 30 mg/kg Mn elevated the levels of
Bacteroidetes
,
Bacteroidaceae
,
Bacteroides
, and
Ruminococcaceae
but decreased
Streptococcaceae
. Importantly, an interaction effect was observed between Mn and BS on the DFI, egg mass, average egg size, and the abundance of
Bacteroides
as well as
Faecalibacterium
. In conclusion, dietary inclusion of Mn and BS could improve the production performance, egg quality, antioxidant capacity, intestinal structure, as well as gut microbiota. Supplementation of 30 mg/kg Mn and 5.0 × 10
9
CFU/kg BS provided the optimal effect.