1. Organizations face compatibility issues with existing systems and data migration challenges when switching to vanilla software, alongside resistance from users accustomed to customized features.

2. Transitioning to vanilla software often leads to integration problems with legacy systems and can result in reduced functionality, impacting user efficiency and adoption.

3. The shift from custom to vanilla software can cause disruptions if the new system lacks specific features users rely on, leading to decreased productivity and user dissatisfaction.

4. User resistance is a major hurdle in adopting vanilla software as it may not cater to all specific business needs like a customized solution, which affects workflow and user acceptance.

5. Compatibility with existing hardware and software infrastructure poses significant risks during transition to vanilla systems, potentially leading to increased costs and extended downtime.