I don't have a Yashica D but it's the same as most Yashica TLRs and many TLRs. The feet stick down a little. Either use a tripod with a small head, or use a tripod with a larger head and a soft surface like a rubber pad and tighten down the tripod screw just enough to hold the camera. Don't tighten it with a strongman's torque or you might distort the bottom plate. Abusing them is probably the origin of the idea that TLRs are subject to damage there.
Even a Bogen/Manfrotto hex quick release plate will fit in between the feet, so there is no need to buy a special expensive tripod head for an inexpensive TLR, but do that if it makes you happy or reassured.