SELECT on full model fails because some columns are created in a later migration

Question

I'm using Entity Framework 6 with SQLite and https://www.nuget.org/packages/System.Data.SQLite.EF6.Migrations. AutomaticMigrationsEnabled is disabled. In update-method I call Migrator.Update(pendingMigration); for each pending migration.

The first migrations run without problems. Then an error occurs because an SQL query selects all columns of a model, but some of these are created in later migrations. The select statement should only contain the columns that are already created and not the full model. What am I doing wrong?