Douglas fir is expected to play an increasingly important role in Swedish forestry under a changing climate. Thus far, seed orchards with clones of phenotypically selected trees (plus trees) have been established to supply the market with highly qualitative reproductive material. Given the high genetic variation of the species, its growth properties are significantly affected by the provenance. Here, we applied microsatellite markers to identify the origin of clones selected within the Swedish breeding programme. Moreover, we analysed the timing of bud burst in open-pollinated families of these clones. In particular, we aimed to explain the provenance effect on phenology by using molecular identification as a proxy. A Bayesian clustering analysis with microsatellite data enabled the assignment of the clones to one of the two varieties and also resolved within-variety origins. The phenological observations indicated an earlier bud burst of the interior variety. Within the coastal variety, the northern provenances exhibited a later bud burst. We found a significant effect of the identified origin on bud burst timing. The results of this study will be used to support further breeding efforts.