Better natural fiber-to-polymer matrix strength can be achieved through alkali and acetylation. With the former, you have to find out the optimum concentration such that the reaction doesn't deteriorate the cell wall. It's also possible to have a combination of the two.
Otherwise which natural fibers are you working with?
First of all do you have any options for chemicas?, What are the fibre names ?.From your question I can understand that one of the elements need wetting in another. This is possible by chemical interaction to yield stable and stronger by products based on chemical nature of constituents. Mechanically the same can be observed through microscopic analysis. Any way experimenting with known chemicals will give best of available options.
For better bonding between fiber and polymer you need to have better fiber wetting. In case of glass, carbon fiber, wetting is not an issue. but In case of Natural fiber you need to clean natural fiber's surface to remove any lignin that is present on fiber surface. removal of lignin enhances better interstetial bonding between fiber and polymer.