The flowers of Capparis brevispina are axillary and solitary.
The peduncle is 3 cm long and slightly pubescent.
The calyx is composed of 4 sepals. The sepals are pubescent, ovate, concave and 8 mm long and 4 mm wide.
The corolla is composed of 4 cream-coloured petals. The petals are ovate-oblong, 2.5-3 cm long and about 1 cm wide. The 2 upper petals have a showy yellow (turning red) blotch at the base.
The androecium is composed of numerous and showy stamens. The filaments are filiform, 2.5 cm long. The anthers are light-blue, oblong and 2 mm long.
The pistil is composed of a filiform and 3 cm long gynophore bearing a 6 mm long ovary and a short and stout style with a simple stigma at the tip.