Confused sentence
"The Toolkit provides clinicians with the ability to document clinical observations for their patients with chronic conditions and use the Toolkit to prompt them for tests and appointments that are due depending upon the condition they have been diagnosed with."
The final "they" does not refer to the patients but to the clinicians which is not what the writer intended.
Rewrite as "Clinicians use the Toolkit to document clinical observations of their patients' chronic conditions. They also use the Toolkit to prompt them about appropriate tests and appointments for each patient."