1. Flexibility: Hubot is highly customizable with multiple plugins available to extend its functionality, while Lita provides a more structured approach with built-in functionality for various tasks like HTTP requests, services integration, and more.

2. Language Support: Hubot is primarily based on Coffeescript, making it easier for developers already familiar with javascript-like syntax, whereas Lita is built on Ruby, attracting developers skilled in Ruby programming.

3. Community Support: Hubot has a larger community with an extensive collection of plugins and scripts developed by users, offering quick solutions to common problems, while Lita has a smaller yet dedicated community providing more focused support and features for specific use cases.

4. Deployment Options: Hubot can be easily deployed on various platforms like Heroku, making it convenient for cloud-based hosting, whereas Lita offers flexibility in deployment methods, allowing users to choose their preferred hosting environment.

5. Ease of Use: Hubot has a simpler learning curve due to its user-friendly scripting language, allowing developers to quickly set up and integrate new functionalities, while Lita requires more in-depth understanding of Ruby programming, which can be challenging for beginners.

6. Scalability: Hubot is suitable for smaller teams and projects due to its lightweight nature, whereas Lita offers better scalability options for larger teams and complex projects with its robust architecture and advanced features.

In Summary, Hubot and Lita differ in flexibility, language support, community support, deployment options, ease of use, and scalability, catering to different user preferences and project requirements.