I have a similar issue but I am not sure I follow your instructions to resolve it. Are you able to expand this a bit more please?
PM> Update-Database Specify the '-Verbose' flag to view the SQL statements being applied to the target database. Applying explicit migrations: [201609020817436_Upgrated_To_Module_Zero_0_11_2, 201609051152345_Add_Foreign_Keys_To_Abp_Tables, 201609221300383_Module_Zero_v1_Improvements, 201611301416047_Upgrated_To_Abp_And_Module_Zero_1_1, 201612292057514_Added_PromotionDeals_Table]. Applying explicit migration: 201609020817436_Upgrated_To_Module_Zero_0_11_2. Applying explicit migration: 201609051152345_Add_Foreign_Keys_To_Abp_Tables. System.Data.SqlClient.SqlException (0x80131904): There is already an object named 'FK_AbpUserOrganizationUnits_AbpUsers_UserId' in the database.