Dica simples e eficaz

Directamente do blog do Darren Cope:

Merge A Directory of Shapefiles Using OGR

mkdir merged
for %f in (*.shp) do (
if not exist merged\merged.shp (
ogr2ogr -f “esri shapefile” merged\merged.shp %f) else (
ogr2ogr -f “esri shapefile” -update -append merged\merged.shp %f -nln Merged )
)