Well there's a few ways of looking at it:
Morphable Biology:
A Shapechanger that breeds with a non-shapechanger could potentially create an offspring that is identical to either parent (Shapechanger if female parent is the Shapechanger, Non-Shapechanger if male Shapechanger) because the very same physiology that allows the Shapechanger to assume different forms could adapt to the 'static' genetic code of the other parent and compensate.
In this situation, a Shapechanger could quite likely create either somewhat odd-looking children, perhaps possessing not-quite formed features or otherwise unusual appearances, or halfbreeds that possess the Shapechanger subtype but much limited shapechanging abilities, like the Dopplegangers are responsible for the Changelings of Eberron.
Unstable Biology:
Odds are that a Shapechanger's very essence is somewhat unstable to account for it's natural abilities. Something could carry a Shapechanger's child, but it is highly unlikely the child would survive to full term as the non-shapechangers DNA would not mesh fully with that of the Shapechanger, and we would be left with a foteus caught half-way between the 'fluid' and 'solid' states of shapechanging.
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Interesting. With the Doppelgangers it was explained to me that the changlings were an extreme aberration since the offspring of human doppel would be another doppel. In fact doppels don't even breed with other doppels they breed with the other to make another doppel thus a lack of doppel society. With the faceless stalkers there is some community albeit small and rudimentary. Therefore I could see Lamashtu serving stalkers (see Rise o the Ruin lords pathfinder #2)pleasing their god by creating disturbing offspring amongst the finer races... hmmm. The community aspect might even allow for a Faceless Stalker 'mamma' to even raise such a child with pride as a sign of servitude to Lamashtu.