Microdiplodia acaciarum- Microdiplodia anagyridis
- Microdiplodia annonicola
- Microdiplodia asterigmatica
- Microdiplodia betulina
- Microdiplodia calamagrostidis
- Microdiplodia calami
- Microdiplodia celtidigena
- Microdiplodia clematidea
- Microdiplodia compressa
- Microdiplodia cornicola
- Microdiplodia coryli
- Microdiplodia cytisi
- Microdiplodia franconica
- Microdiplodia genistarum
- Microdiplodia gillii
- Microdiplodia haplopappi
- Microdiplodia heterothalami
- Microdiplodia inconspicua
- Microdiplodia indica
- Microdiplodia infuscans
- Microdiplodia intermedia
- Microdiplodia ivicola
- Microdiplodia jasmini
- Microdiplodia melaena
- Microdiplodia microsporella
- Microdiplodia mimuli
- Microdiplodia minor
- Microdiplodia minuscula
- Microdiplodia minuta
- Microdiplodia morreniae
- Microdiplodia mycophaga
- Microdiplodia narthecii
- Microdiplodia passeriniana
- Microdiplodia perpusilla
- Microdiplodia persica
- Microdiplodia petrakiana
- Microdiplodia pterocaryae
- Microdiplodia quercicola
- Microdiplodia ramanae
- Microdiplodia retamae
- Microdiplodia rhamnicola
- Microdiplodia rhamnincola
- Microdiplodia rusci
- Microdiplodia ruthenica
- Microdiplodia sassafras
- Microdiplodia secalis
- Microdiplodia sidae
- Microdiplodia siliquastri
- Microdiplodia subtecta
- Microdiplodia viciae