Hi, Chris. This is a pretty common question, so you're not alone. It sounds like you have the right idea -- tough workouts and clean eating. If you're keeping consistent, that's the best possible track to be on! So then, the question may be more specific to your training or diet. Now, you have to ask yourself a few things to narrow it down a bit. I have some questions for you to ask yourself...
1. Are you keeping a journal? Noting how you feel post-workout will help you to identify things that may not be effective for you.
2. Are you insisting on progression? The only problem with muscle confusion is that you lose sight of goals pretty fast. If you're doing intervals, are you adding more sprints each week? If you're doing yoga, are you adding new and tougher poses? If you're weight training or doing bodyweight work, are you adding reps? Without measurable progression, it's easy for anyone to stagnate. You may feel fit and not look it, or vice versa.
3. How good is your diet, really? Are there things you can be cutting back on? Do you eat a lot of salt, which can cause muscle-obscuring water retention (especially in women)?
4. Are you doing your cardio pre-breakfast or post-weights? Doing cardio at these times helps you burn more fat.
Contemplate those questions, for starters, and see what you come up with and keep us all posted!