The MathWorks receives many questions relating to Simulink state ordering, state initialization, and Simulink solver performance. Many times customers are not aware of existing capabilities that are available and will solve their current issues.
There are 3 MATLAB central submissions (all separate downloads!) that have been used with multiple customers to show current capabilities.
Example 1 : Explores how Simulink defines its states and what you can do once you know that definition.
Example 2 : Explores using the Simulink Debugger to extract information
from a simulink diagram or simulation run.
Example 3 : Explores how to leverage the 'Structure with Time' Simulink data format to alleviate ordering and index issues on inputs/outputs/states.
This script file will show the following:
1) How to interrogate Simulink's state definition
2) leveraging Simulink's state definition to map to your own
3) aligning state definition with eigenvector elements