Spring Data Neo4j is a reflection of a graph's nature, allowing it to work well with other systems while making sense of connected data. It demonstrates that graphs are everywhere and provides tools for exploring graph databases like Toad and Navicat. The database stores data in custom storage formats optimized for nodes, relationships, and different property types. Neo4j Enterprise supports fail-over and load-balancing in a cluster with high availability, where each node runs on its own machine and filesystem using a custom protocol for syncing. The Spring Data Neo4j add-on is currently in development, but there are plans to make it work in a JEE environment via CDI. Indexing fields can be beneficial, but it depends on usage patterns and queries, and there are tools available for one-time data setup and performance optimization.